data_3YD # _chem_comp.id 3YD _chem_comp.name "(S)-2-(7-(2-Amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-6-yl)heptanamido)pentanedioic acid" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H25 N5 O6" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2014-12-10 _chem_comp.pdbx_modified_date 2016-04-15 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 407.421 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 3YD _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 4ZYZ _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal 3YD N1 N1 N 0 1 N N N -22.371 16.952 23.890 -7.775 -1.566 0.525 N1 3YD 1 3YD C2 C1 C 0 1 N N N -21.959 15.888 24.674 -8.819 -1.381 -0.250 C2 3YD 2 3YD N3 N2 N 0 1 N N N -22.753 14.712 24.769 -8.928 -0.301 -1.075 N3 3YD 3 3YD C4 C2 C 0 1 N N N -23.909 14.564 24.016 -7.943 0.625 -1.116 C4 3YD 4 3YD N5 N3 N 0 1 Y N N -24.212 17.577 22.345 -5.580 -0.632 1.226 N5 3YD 5 3YD C6 C3 C 0 1 Y N N -25.253 17.084 21.879 -4.883 0.494 0.868 C6 3YD 6 3YD C7 C4 C 0 1 Y N N -25.406 15.912 22.358 -5.582 1.185 -0.049 C7 3YD 7 3YD C8 C5 C 0 1 Y N N -24.340 15.589 23.237 -6.815 0.438 -0.287 C8 3YD 8 3YD C9 C6 C 0 1 Y N N -23.490 16.811 23.203 -6.758 -0.692 0.541 C9 3YD 9 3YD O10 O1 O 0 1 N N N -24.503 13.504 24.135 -8.027 1.595 -1.849 O10 3YD 10 3YD N11 N4 N 0 1 N N N -20.762 15.981 25.438 -9.833 -2.306 -0.229 N11 3YD 11 3YD C12 C7 C 0 1 N N N -22.002 18.275 16.936 2.501 0.218 -0.273 C12 3YD 12 3YD C13 C8 C 0 1 N N N -22.968 17.075 17.078 1.398 0.715 0.664 C13 3YD 13 3YD C14 C9 C 0 1 N N N -24.369 17.532 17.556 0.033 0.308 0.105 C14 3YD 14 3YD C15 C10 C 0 1 N N N -24.490 17.378 19.080 -1.070 0.805 1.041 C15 3YD 15 3YD C16 C11 C 0 1 N N N -25.971 17.213 19.475 -2.435 0.398 0.482 C16 3YD 16 3YD C17 C12 C 0 1 N N N -20.921 17.910 15.887 3.845 0.619 0.278 C17 3YD 17 3YD O18 O2 O 0 1 N N N -20.990 16.806 15.394 3.914 1.242 1.317 O18 3YD 18 3YD N19 N5 N 0 1 N N N -19.835 18.772 15.444 4.971 0.287 -0.384 N19 3YD 19 3YD C20 C13 C 0 1 N N S -19.491 20.126 15.841 6.278 0.677 0.151 C20 3YD 20 3YD C21 C14 C 0 1 N N N -20.634 21.093 15.685 7.349 -0.285 -0.368 C21 3YD 21 3YD C22 C15 C 0 1 N N N -20.827 21.546 14.242 7.088 -1.687 0.185 C22 3YD 22 3YD C23 C16 C 0 1 N N N -22.112 22.349 14.173 8.143 -2.634 -0.327 C23 3YD 23 3YD O24 O3 O 0 1 N N N -23.186 21.787 13.823 9.014 -2.228 -1.059 O24 3YD 24 3YD O25 O4 O 0 1 N N N -22.111 23.573 14.468 8.114 -3.927 0.031 O25 3YD 25 3YD C26 C17 C 0 1 N N N -18.966 20.194 17.254 6.604 2.079 -0.293 C26 3YD 26 3YD O27 O5 O 0 1 N N N -17.820 19.758 17.516 5.825 2.691 -0.985 O27 3YD 27 3YD O28 O6 O 0 1 N N N -19.665 20.709 18.170 7.760 2.650 0.081 O28 3YD 28 3YD C29 C18 C 0 1 N N N -26.218 17.762 20.890 -3.539 0.895 1.418 C29 3YD 29 3YD H1 H1 H 0 1 N N N -22.473 13.979 25.389 -9.713 -0.197 -1.635 H1 3YD 30 3YD H2 H2 H 0 1 N N N -23.918 18.500 22.098 -5.279 -1.289 1.873 H2 3YD 31 3YD H3 H3 H 0 1 N N N -26.232 15.256 22.127 -5.289 2.113 -0.517 H3 3YD 32 3YD H4 H4 H 0 1 N N N -20.215 16.817 25.410 -9.772 -3.080 0.352 H4 3YD 33 3YD H5 H5 H 0 1 N N N -20.468 15.210 26.003 -10.611 -2.184 -0.795 H5 3YD 34 3YD H6 H6 H 0 1 N N N -21.524 18.484 17.905 2.450 -0.868 -0.350 H6 3YD 35 3YD H7 H7 H 0 1 N N N -22.559 19.163 16.602 2.366 0.660 -1.260 H7 3YD 36 3YD H8 H8 H 0 1 N N N -23.067 16.578 16.102 1.533 0.274 1.651 H8 3YD 37 3YD H9 H9 H 0 1 N N N -22.553 16.366 17.810 1.449 1.801 0.741 H9 3YD 38 3YD H10 H10 H 0 1 N N N -24.518 18.588 17.285 -0.102 0.750 -0.883 H10 3YD 39 3YD H11 H11 H 0 1 N N N -25.138 16.916 17.067 -0.019 -0.778 0.027 H11 3YD 40 3YD H12 H12 H 0 1 N N N -23.925 16.491 19.403 -0.936 0.364 2.028 H12 3YD 41 3YD H13 H13 H 0 1 N N N -24.079 18.273 19.571 -1.019 1.891 1.118 H13 3YD 42 3YD H14 H14 H 0 1 N N N -26.600 17.763 18.759 -2.570 0.840 -0.505 H14 3YD 43 3YD H15 H15 H 0 1 N N N -26.235 16.145 19.450 -2.487 -0.688 0.404 H15 3YD 44 3YD H16 H16 H 0 1 N N N -19.230 18.368 14.758 4.916 -0.211 -1.215 H16 3YD 45 3YD H17 H17 H 0 1 N N N -18.683 20.473 15.180 6.251 0.637 1.240 H17 3YD 46 3YD H18 H18 H 0 1 N N N -20.435 21.977 16.308 7.316 -0.311 -1.457 H18 3YD 47 3YD H19 H19 H 0 1 N N N -21.558 20.604 16.027 8.332 0.057 -0.043 H19 3YD 48 3YD H20 H20 H 0 1 N N N -20.898 20.669 13.581 7.121 -1.660 1.274 H20 3YD 49 3YD H21 H21 H 0 1 N N N -19.978 22.172 13.930 6.105 -2.028 -0.140 H21 3YD 50 3YD H22 H22 H 0 1 N N N -22.990 23.922 14.376 8.812 -4.496 -0.323 H22 3YD 51 3YD H23 H23 H 0 1 N N N -19.181 20.689 18.987 7.925 3.551 -0.228 H23 3YD 52 3YD H24 H24 H 0 1 N N N -26.046 18.849 20.897 -3.487 1.982 1.496 H24 3YD 53 3YD H25 H25 H 0 1 N N N -27.256 17.553 21.189 -3.404 0.454 2.405 H25 3YD 54 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 3YD O24 C23 DOUB N N 1 3YD C23 C22 SING N N 2 3YD C23 O25 SING N N 3 3YD C22 C21 SING N N 4 3YD O18 C17 DOUB N N 5 3YD N19 C20 SING N N 6 3YD N19 C17 SING N N 7 3YD C21 C20 SING N N 8 3YD C20 C26 SING N N 9 3YD C17 C12 SING N N 10 3YD C12 C13 SING N N 11 3YD C13 C14 SING N N 12 3YD C26 O27 DOUB N N 13 3YD C26 O28 SING N N 14 3YD C14 C15 SING N N 15 3YD C15 C16 SING N N 16 3YD C16 C29 SING N N 17 3YD C29 C6 SING N N 18 3YD C6 N5 SING Y N 19 3YD C6 C7 DOUB Y N 20 3YD N5 C9 SING Y N 21 3YD C7 C8 SING Y N 22 3YD C9 C8 DOUB Y N 23 3YD C9 N1 SING N N 24 3YD C8 C4 SING N N 25 3YD N1 C2 DOUB N N 26 3YD C4 O10 DOUB N N 27 3YD C4 N3 SING N N 28 3YD C2 N3 SING N N 29 3YD C2 N11 SING N N 30 3YD N3 H1 SING N N 31 3YD N5 H2 SING N N 32 3YD C7 H3 SING N N 33 3YD N11 H4 SING N N 34 3YD N11 H5 SING N N 35 3YD C12 H6 SING N N 36 3YD C12 H7 SING N N 37 3YD C13 H8 SING N N 38 3YD C13 H9 SING N N 39 3YD C14 H10 SING N N 40 3YD C14 H11 SING N N 41 3YD C15 H12 SING N N 42 3YD C15 H13 SING N N 43 3YD C16 H14 SING N N 44 3YD C16 H15 SING N N 45 3YD N19 H16 SING N N 46 3YD C20 H17 SING N N 47 3YD C21 H18 SING N N 48 3YD C21 H19 SING N N 49 3YD C22 H20 SING N N 50 3YD C22 H21 SING N N 51 3YD O25 H22 SING N N 52 3YD O28 H23 SING N N 53 3YD C29 H24 SING N N 54 3YD C29 H25 SING N N 55 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor 3YD SMILES ACDLabs 12.01 "N1=C(NC(=O)c2cc(nc12)CCCCCCC(=O)NC(C(=O)O)CCC(O)=O)N" 3YD InChI InChI 1.03 "InChI=1S/C18H25N5O6/c19-18-22-15-11(16(27)23-18)9-10(20-15)5-3-1-2-4-6-13(24)21-12(17(28)29)7-8-14(25)26/h9,12H,1-8H2,(H,21,24)(H,25,26)(H,28,29)(H4,19,20,22,23,27)/t12-/m0/s1" 3YD InChIKey InChI 1.03 YFTJOYZLYVUUOD-LBPRGKRZSA-N 3YD SMILES_CANONICAL CACTVS 3.385 "NC1=Nc2[nH]c(CCCCCCC(=O)N[C@@H](CCC(O)=O)C(O)=O)cc2C(=O)N1" 3YD SMILES CACTVS 3.385 "NC1=Nc2[nH]c(CCCCCCC(=O)N[CH](CCC(O)=O)C(O)=O)cc2C(=O)N1" 3YD SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "c1c([nH]c2c1C(=O)NC(=N2)N)CCCCCCC(=O)N[C@@H](CCC(=O)O)C(=O)O" 3YD SMILES "OpenEye OEToolkits" 1.9.2 "c1c([nH]c2c1C(=O)NC(=N2)N)CCCCCCC(=O)NC(CCC(=O)O)C(=O)O" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier 3YD "SYSTEMATIC NAME" ACDLabs 12.01 "N-[7-(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-6-yl)heptanoyl]-L-glutamic acid" 3YD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "(2S)-2-[7-(2-azanyl-4-oxidanylidene-3,7-dihydropyrrolo[2,3-d]pyrimidin-6-yl)heptanoylamino]pentanedioic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 3YD "Create component" 2014-12-10 RCSB 3YD "Modify name" 2015-06-08 RCSB 3YD "Initial release" 2016-04-20 RCSB #